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High resolution crystal structure of phycoerythrin 545 from the marine cryptophyte rhodomonas CS24
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QGW
Crystallization Crystal Properties Matthews coefficient Solvent content 2.23 44.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.98 α = 90 b = 82.764 β = 90 c = 89.477 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 1998-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.8 NSLS X8C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 0.966 60.86 89.7 0.057 0.057 13.4 4.4 270473 249226 5.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 0.966 1.02 82.1 0.55 0.55 1.8 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1QGW 0.97 60.86 241569 241569 7580 89.45 0.10727 0.10727 0.10669 0.12598 RANDOM 9.253
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.12 -0.07 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.037 r_dihedral_angle_4_deg 13.917 r_dihedral_angle_3_deg 10.881 r_sphericity_free 10.553 r_dihedral_angle_1_deg 5.655 r_scangle_it 3.975 r_sphericity_bonded 3.83 r_scbond_it 3.198 r_mcangle_it 2.564 r_mcbond_it 2.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.037 r_dihedral_angle_4_deg 13.917 r_dihedral_angle_3_deg 10.881 r_sphericity_free 10.553 r_dihedral_angle_1_deg 5.655 r_scangle_it 3.975 r_sphericity_bonded 3.83 r_scbond_it 3.198 r_mcangle_it 2.564 r_mcbond_it 2.005 r_angle_refined_deg 1.809 r_rigid_bond_restr 1.528 r_mcbond_other 1.123 r_angle_other_deg 1 r_nbd_refined 0.241 r_symmetry_vdw_other 0.233 r_xyhbond_nbd_refined 0.204 r_nbd_other 0.188 r_symmetry_hbond_refined 0.181 r_nbtor_refined 0.176 r_symmetry_vdw_refined 0.15 r_chiral_restr 0.109 r_nbtor_other 0.089 r_bond_refined_d 0.017 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3727 Nucleic Acid Atoms Solvent Atoms 1040 Heterogen Atoms 359
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling AMoRE phasing